Title:
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diffuStats: an R package to compute diffusion-based scores on biological networks
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Author:
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Picart Armada, Sergio; Thompson, Wesley; Buil, Alfonso; Perera Lluna, Alexandre
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Other authors:
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Universitat Politècnica de Catalunya. Departament d'Enginyeria de Sistemes, Automàtica i Informàtica Industrial; Universitat Politècnica de Catalunya. SISBIO - Senyals i Sistemes Biomèdics |
Abstract:
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This is a pre-copyedited, author-produced version of an article accepted for publication in Bioinformatics following peer review. The version of record Sergio Picart-Armada, Wesley K Thompson, Alfonso Buil, Alexandre Perera-Lluna; diffuStats: an R package to compute diffusion-based scores on biological networks, Bioinformatics, Volume 34, Issue 3, 1 February 2018, Pages 533–534 is available online at: https://doi.org/10.1093/bioinformatics/btx632. |
Abstract:
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Label propagation and diffusion over biological networks are a common mathematical formalism in computational biology for giving context to molecular entities and prioritising novel candidates in the area of study.
There are several choices in conceiving the diffusion process -involving the graph kernel, the score definitions and the presence of a posterior statistical normalisation- which have an impact on the results.
This manuscript describes diffuStats, an R package that provides a collection of graph kernels and diffusion scores, as well as a parallel permutation analysis for the normalised scores, that eases the computation of the scores and their benchmarking for an optimal choice. |
Abstract:
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Peer Reviewed |
Subject(s):
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-Àrees temàtiques de la UPC::Informàtica::Aplicacions de la informàtica::Bioinformàtica -Computational biology -R (Computer program language) -Biological networks
Genetic networks
Network analysis
Networks
Classification -Biologia computacional -R (Llenguatge de programació) |
Rights:
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Attribution-NonCommercial-NoDerivs 3.0 Spain
http://creativecommons.org/licenses/by-nc-nd/3.0/es/ |
Document type:
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Article - Submitted version Article |
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